miRNA display CGI


Results 1 - 20 of 34 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
12480 5' -54.7 NC_003324.1 + 56217 0.67 0.717893
Target:  5'- cGGCCAUaaagCGGcCGAuGUGUUCcGGGUUGg -3'
miRNA:   3'- -CCGGUA----GUC-GCUuCGCGAGuUCCAGC- -5'
12480 5' -54.7 NC_003324.1 + 54209 0.65 0.779139
Target:  5'- aGCCAau-GCGcAGGCGCcaacuuuUCGAGGUUGg -3'
miRNA:   3'- cCGGUaguCGC-UUCGCG-------AGUUCCAGC- -5'
12480 5' -54.7 NC_003324.1 + 53750 0.67 0.685466
Target:  5'- cGCCGUaucaAGCucGGCGCUcCAAGGUg- -3'
miRNA:   3'- cCGGUAg---UCGcuUCGCGA-GUUCCAgc -5'
12480 5' -54.7 NC_003324.1 + 49526 0.73 0.341335
Target:  5'- cGGCCGUaucgagCGGCGAGGCGaCgugCAuGGUCGu -3'
miRNA:   3'- -CCGGUA------GUCGCUUCGC-Ga--GUuCCAGC- -5'
12480 5' -54.7 NC_003324.1 + 48757 1.1 0.000952
Target:  5'- aGGCCAUCAGCGAAGCGCUCAAGGUCGc -3'
miRNA:   3'- -CCGGUAGUCGCUUCGCGAGUUCCAGC- -5'
12480 5' -54.7 NC_003324.1 + 47975 0.74 0.309523
Target:  5'- cGGCCAUCGGCGcAGCacgGUUCGgcaaAGGUCc -3'
miRNA:   3'- -CCGGUAGUCGCuUCG---CGAGU----UCCAGc -5'
12480 5' -54.7 NC_003324.1 + 45690 0.69 0.586553
Target:  5'- gGGC--UCGGCGAGGCGUgagCAGGG-Ca -3'
miRNA:   3'- -CCGguAGUCGCUUCGCGa--GUUCCaGc -5'
12480 5' -54.7 NC_003324.1 + 44518 0.7 0.5009
Target:  5'- cGGCCAUCAGCGAccgaagucucGGCGCcc--GGUg- -3'
miRNA:   3'- -CCGGUAGUCGCU----------UCGCGaguuCCAgc -5'
12480 5' -54.7 NC_003324.1 + 42659 0.7 0.521871
Target:  5'- cGGCCuaCAGCGAGGCuGCcggCAcGGUCa -3'
miRNA:   3'- -CCGGuaGUCGCUUCG-CGa--GUuCCAGc -5'
12480 5' -54.7 NC_003324.1 + 38727 0.75 0.273003
Target:  5'- -uCCAcagUCcGCGAGGCGUUCAAGGUCu -3'
miRNA:   3'- ccGGU---AGuCGCUUCGCGAGUUCCAGc -5'
12480 5' -54.7 NC_003324.1 + 35832 0.67 0.706076
Target:  5'- aGGCCAUggauauuccaCAGCgcgacgagcucguGAAGCGUauccgCAAGGUCa -3'
miRNA:   3'- -CCGGUA----------GUCG-------------CUUCGCGa----GUUCCAGc -5'
12480 5' -54.7 NC_003324.1 + 35226 0.66 0.749554
Target:  5'- cGCCGaaGGUGAcgaaGGCGCU-GAGGUCa -3'
miRNA:   3'- cCGGUagUCGCU----UCGCGAgUUCCAGc -5'
12480 5' -54.7 NC_003324.1 + 32180 0.68 0.608505
Target:  5'- cGGCCucacCGGCGAcgagccgaGGCGCagCGAGGcCGa -3'
miRNA:   3'- -CCGGua--GUCGCU--------UCGCGa-GUUCCaGC- -5'
12480 5' -54.7 NC_003324.1 + 31845 0.67 0.684376
Target:  5'- aGGCCGgcaGGCGuuGGCGCccccaguUCAAGGcaUCGg -3'
miRNA:   3'- -CCGGUag-UCGCu-UCGCG-------AGUUCC--AGC- -5'
12480 5' -54.7 NC_003324.1 + 31315 0.69 0.597514
Target:  5'- cGGCCggCGGCGcuGGCGCUggCGGGGgcaUCGu -3'
miRNA:   3'- -CCGGuaGUCGCu-UCGCGA--GUUCC---AGC- -5'
12480 5' -54.7 NC_003324.1 + 30102 0.68 0.630538
Target:  5'- cGCCuucgGUCAGCGAuuGCGa--AGGGUCGa -3'
miRNA:   3'- cCGG----UAGUCGCUu-CGCgagUUCCAGC- -5'
12480 5' -54.7 NC_003324.1 + 24824 0.68 0.652577
Target:  5'- cGGCa---GGCGGAucGCGCcgaCAAGGUCGg -3'
miRNA:   3'- -CCGguagUCGCUU--CGCGa--GUUCCAGC- -5'
12480 5' -54.7 NC_003324.1 + 21859 0.69 0.597514
Target:  5'- gGGCCuccUCGGCGGccuuGGCcuucUUCGGGGUCGa -3'
miRNA:   3'- -CCGGu--AGUCGCU----UCGc---GAGUUCCAGC- -5'
12480 5' -54.7 NC_003324.1 + 21501 0.68 0.652577
Target:  5'- cGcCCGUC-GCGu--UGCUCAAGGUCGg -3'
miRNA:   3'- cC-GGUAGuCGCuucGCGAGUUCCAGC- -5'
12480 5' -54.7 NC_003324.1 + 19368 0.68 0.660277
Target:  5'- cGuCCGUCAGCGAuggaucgacgccGGCGCgCGucgcgccgugcaugAGGUCGg -3'
miRNA:   3'- cC-GGUAGUCGCU------------UCGCGaGU--------------UCCAGC- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.